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If you use plots from MultiQC in a publication or presentation, please cite:

MultiQC: Summarize analysis results for multiple tools and samples in a single report
Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
Bioinformatics (2016)
doi: 10.1093/bioinformatics/btw354
PMID: 27312411

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About MultiQC

This report was generated using MultiQC, version 1.8

You can see a YouTube video describing how to use MultiQC reports here: https://youtu.be/qPbIlO_KWN0

For more information about MultiQC, including other videos and extensive documentation, please visit http://multiqc.info

You can report bugs, suggest improvements and find the source code for MultiQC on GitHub: https://github.com/ewels/MultiQC

MultiQC is published in Bioinformatics:

MultiQC: Summarize analysis results for multiple tools and samples in a single report
Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
Bioinformatics (2016)
doi: 10.1093/bioinformatics/btw354
PMID: 27312411

A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

Run Name: R028
Run Id: r54063_20181211_143459
Instrument: Sequel 54063
Run Date: 2018-12-11
CreatedBy: slameira

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Report generated on 2020-06-23, 17:44 based on data in:

/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/e5/281c3ec25626ad507e153b3d2efe2a/m54063_181211_144629_adapter.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/e5/281c3ec25626ad507e153b3d2efe2a/m54063_181211_144629_control.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/e5/281c3ec25626ad507e153b3d2efe2a/m54063_181211_144629_lengths.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/e5/281c3ec25626ad507e153b3d2efe2a/m54063_181211_144629_loading.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/e5/281c3ec25626ad507e153b3d2efe2a/m54063_181211_144629_overview.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/e5/281c3ec25626ad507e153b3d2efe2a/m54063_181211_144629_productivity.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/e5/281c3ec25626ad507e153b3d2efe2a/m54063_181211_144629_subreads.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/8e/09df35767bb3c6eef9ffe971bd055f/m54063_181212_112538_adapter.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/8e/09df35767bb3c6eef9ffe971bd055f/m54063_181212_112538_control.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/8e/09df35767bb3c6eef9ffe971bd055f/m54063_181212_112538_lengths.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/8e/09df35767bb3c6eef9ffe971bd055f/m54063_181212_112538_loading.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/8e/09df35767bb3c6eef9ffe971bd055f/m54063_181212_112538_overview.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/8e/09df35767bb3c6eef9ffe971bd055f/m54063_181212_112538_productivity.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/8e/09df35767bb3c6eef9ffe971bd055f/m54063_181212_112538_subreads.txt
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/b3/9786f0c2183b7be8b128b5a0d41f29/1_A01_mqc.png
/bioinfo/users/talaeita/git/pacbio-smrtlink/pbRunQC/work/14/18aeda32dab0d57d312b075a622944/2_B01_mqc.png

Status

Status first table.

Showing ²/₂ rows and ⁷/₇ columns.

Well	Well Cell Name	Data Set	Movie Time	Organism	Kit Version	SMRT Link Version	Metadata Context Id
1_A01	H358_DMSO	H358_DMSO-Cell1	10 hrs	homo_sapiens	3.0	6.0	m54063_181211_144629
2_B01	H358_DMSO	H358_DMSO-Cell3	10 hrs	homo_sapiens	3.0	6.0	m54063_181212_112538

Uncheck the tick box to hide columns. Click and drag the handle on the left to change order.

Sort	Visible	Group	Column	Description	ID	Scale
\|\|			Well Cell Name	Well Cell Name	`Wellcell_Name`	None
\|\|			Data Set	Data Set	`Data_Set`	None
\|\|			Movie Time	Movie Time	`Movie_Time`	None
\|\|			Organism	Organism	`Organism`	None
\|\|			Kit Version	Kit Version	`Kit_Version`	None
\|\|			SMRT Link Version	SMRT Link Version	`SMRT_Link_Version`	None
\|\|			Metadata Context Id	Metadata Context Id	`Metadata_Context_Id`	None

Raw Data Report

Raw Data Report length table.

Showing ²/₂ rows and ⁹/₉ columns.

Well	Polymerase Read Bases	Polymerase Reads	Polymerase Read Length (mean)	Polymerase Read N50	Subread Length (mean)	Subread N50	Insert N50	Insert Length (mean)	Unique Molecular Yield
1_A01	19327327	490	39444	73864	1470	2114	3050	2571	0.00 Gb
2_B01	21968510	576	38140	70417	1578	2091	3118	2694	0.00 Gb

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Sort	Visible	Group	Column	Description	ID	Scale
\|\|			Polymerase Read Bases	Polymerase Read Bases	`Polymerase_Read_Bases`	None
\|\|			Polymerase Reads	Polymerase Reads	`Polymerase_Reads`	None
\|\|			Polymerase Read Length (mean)	Polymerase Read Length (mean)	`Polymerase_Read_Length`	None
\|\|			Polymerase Read N50	Polymerase Read N50	`Polymerase_Read_N50`	None
\|\|			Subread Length (mean)	Subread Length (mean)	`Subread_Length`	None
\|\|			Subread N50	Subread N50	`Subread_N50`	None
\|\|			Insert N50	Insert N50	`Insert_N50`	None
\|\|			Insert Length (mean)	Insert Length (mean)	`Insert_Length_subread_mean`	None
\|\|			Unique Molecular Yield	Unique Molecular Yield	`Unique_Molecular_Yield`	None

Adapter Report

Adapter Report Adapter table.

Showing ²/₂ rows and ³/₃ columns.

Well	Adapter Dimers (0-10bp) %	Short Inserts (11-100bp) %	Local Base Rate
1_A01	0.00	0.00 %	2.74
2_B01	0.00	0.00 %	2.87

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Sort	Visible	Group	Column	Description	ID	Scale
\|\|			Adapter Dimers (0-10bp) %	Adapter Dimers (0-10bp) %	`Adapter_Dimers`	None
\|\|			Short Inserts (11-100bp) %	Short Inserts (11-100bp) %	`Short_Inserts`	None
\|\|			Local Base Rate	Average base incorporation rate	`Local_Base_Rate`	None

Control Report

Control Report Control table.

Showing ²/₂ rows and ⁴/₄ columns.

Well	Number Of Control Reads	Control Read Length Mean	Control Read Concordance Mean	Control Read Concordance Mode
1_A01	8737	37651	0.87	0.89
2_B01	10961	36124	0.86	0.89

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Sort	Visible	Group	Column	Description	ID	Scale
\|\|			Number Of Control Reads	Number Of Control Reads	`Number_of_of_Control_Reads`	None
\|\|			Control Read Length Mean	Control Read Length Mean	`Control_Read_Length_Mean`	None
\|\|			Control Read Concordance Mean	Control Read Concordance Mean	`Control_Read_Concordance_Mean`	None
\|\|			Control Read Concordance Mode	Control Read Concordance Mode	`Control_Read_Concordance_Mode`	None

Loading Statistics

Loading Statistics productivity table.

Showing ²/₂ rows and ⁷/₇ columns.

Well	Productive ZMWs	Productivity 0	%	Productivity 1	%	Productivity 2	%
1_A01	1009609	229107	22.69 %	498841.00	49.41 %	290398.00	28.76 %
2_B01	1007385	151191	15.01 %	587328.00	58.30 %	279827.00	27.78 %

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Sort	Visible	Group	Column	Description	ID	Scale
\|\|			Productive ZMWs	productive ZMWs	`Productive_ZMWs`	None
\|\|			Productivity 0	empty ZMWs	`Productivity_0`	None
\|\|			%	percentage empty ZMWs	`P0`	None
\|\|			Productivity 1	ZMW with a high quality read detected	`Productivity_1`	None
\|\|			%	percentage ZMW with a high quality read detected	`P1`	None
\|\|			Productivity 2	other: no high quality	`Productivity_2`	None
\|\|			%	percentage no high quality	`P2`	None

Productivity

Productivity productivity_stat

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1 A01

1 A01 Embedded image 1_A01_mqc.png

2 B01

2 B01 Embedded image 2_B01_mqc.png